TABLE 1.
Primer and probe sequences for real-time fluorogenic RT-PCR assays for detection of bacteriophage MS2
| Assay | Starta | Probe and primer sequencesb | Product of target genec |
|---|---|---|---|
| 1 | 632 | Forward, GTCGCGGTAATTGGCGC | Assembly protein |
| 708 | Reverse, GGCCACGTGTTTTGATCGA | ||
| 650 | Probe, AGGCGCTCCGCTACCTTGCCCT | ||
| 2 | 1155 | Forward, TGTGGAGAGACAGGGCACTG | Assembly protein |
| 1231 | Reverse, CAGTTGTTGGCCATACGGATT | ||
| 1176 | Probe, TAAGGCCCAAATCTCAGCCATGCATC | ||
| 3 | 1449 | Forward, CGTTCACAGGCTTACAAAGTAACCT | Coat protein |
| 1555 | Reverse, CCAACAGTCTGGGTTGCCAC | ||
| 1498 | Probe, AGAATCGCAAATACACCATCAAAGTCGAGGT | ||
| 4 | 1693 | Forward, CCTCAGCAATCGCAGCAAA | Lysis protein |
| 1807 | Reverse, GGAAGATCAATACATAAAGAGTTGAACTTC | ||
| 1743 | Probe, CAAACATGAGGATTACCCATGTCGAAGACA | ||
| 5 | 2232 | Forward, GCTCTGAGAGCGGCTCTATTG | RNA replicase β chain |
| 2301 | Reverse, CGTTATAGCGGACCGCGT | ||
| 2255 | Probe, CCGAGACCAATGTGCGCCGTG |
a
Position of first base in each oligonucleotide sequence relative to the whole genome sequence in GenBank accession no. NC_001417.
b
All sequences are listed in the 5′-to-3′ direction. In the assays as performed, the 5′ base of each probe was labeled with FAM and the 3′ base of each probe was labeled with TAMRA.
c
Protein names as given in the GenBank genome sequence accession NC_001417. Assembly protein is also known as maturase, or “A-protein.”